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Evaluation of subsequent passaging on whole genome expression

ABSTRACT: Heart diseases are as most leading causes of morbidity and mortality in the world. One of the promising approaches to cure these diseases is cell therapy using endogenous cardiac precursor cells resident in heart tissues. These cells are isolated from heart biopsies, cultured and passaged to reach to the desirable cell count necessary for transplantation. The process of cell propagation and subsequent passages may cause gene expression alteration unsuitable and dangerous for cell therapy; so in our study, we analyzed whole genome expression using microarray technology to compare expressed transcripts in 4 passages 6, 9, 12 and 15.

ORGANISM(S): Homo sapiens

PROVIDER: GSE43447 | GEO | 2013/01/15

SECONDARY ACCESSION(S): PRJNA186437

REPOSITORIES: GEO

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Evaluation of subsequent passaging on whole genome expression

Project description:Heart diseases are as most leading causes of morbidity and mortality in the world. One of the promising approaches to cure these diseases is cell therapy using endogenous cardiac precursor cells resident in heart tissues. These cells are isolated from heart biopsies, cultured and passaged to reach to the desirable cell count necessary for transplantation. The process of cell propagation and subsequent passages may cause gene expression alteration unsuitable and dangerous for cell therapy; so in our study, we analyzed whole genome expression using microarray technology to compare expressed transcripts in 4 passages 6, 9, 12 and 15. There were 4 different passage samples (6, 9, 12, and 15) each stage with three replicates. Replicates for passage 6 were determied as control group and the data was analyzed compaired to this passage.

2013-01-15 | E-GEOD-43447 | biostudies-arrayexpress

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Project description:Aspergillus fumigatus is an environmental saprophyte and opportunistic fungal pathogen of the human lung. Serially passaging of A. fumigatus on an agar produced from Galleria mellonella larvae produced strains showing alterations in virulence, anti-fungal susceptibility and in protein abundances that may indicate a degree of adaptation or selection after 25 passages on the artificial agar. While passaged strains demonstrated reduced virulence in G. mellonella larvae, they demonstrated increased tolerance to haemocyte mediated killing, hydrogen peroxide, itraconazole and amphotericin B. Label-free proteomic analysis of control and passaged A. fumigatus strains revealed a total of 3329 proteins of which, 1902 remained following filtration and 32 proteins were statistically significant and differentially abundant. Proteins that play a role in the oxidative stress response were altered in abundance in the passaged strain and included (S)-S-oxide reductase (+2.63 fold), developmental regulator FlbA (+2.27 fold) and histone H2A.Z (-1.82 fold). The results presented here indicate that prolonged culturing of A. fumigatus on Galleria extract agar results in alterations in susceptibility to oxidative stress and in the abundance of proteins associated with the oxidative stress response. The phenomenon may be a result of selection for strains suitable for survival in the adverse conditions imposed by the innate immune response.

2023-05-10 | PXD036787 | Pride

Study of the molecular stability of patient-derived tumor xenograft (PDX) for human renal cell carcinoma (RCC) in nude mice during subsequent passages in mice

Project description:We established a large panel of preclinical models of human RCC directly from patients, faithfully reproducing the biological features of the original tumor. RCC tissues were collected for 8 years from 336 patients undergoing surgery, xenografted subcutaneously in nude mice, and serially passaged into new mice up to 13 passages. Tissue samples from the primary tumor and tumors grown in mice through passages were analyzed at the histology, genetic and for of them at the molecular levels for biological tissue stability. We established a large panel of 30 RCC models and 5 them of the clear cell type (clear cell renal cell carcinoma, CCC) were characterized at the mRNA expression level.

2016-06-29 | GSE83820 | GEO

Study of the molecular stability of patient-derived tumor xenograft (PDX) for human renal cell carcinoma (RCC) in nude mice during subsequent passages in mice

2016-06-29 | E-GEOD-83820 | biostudies-arrayexpress

Genome-wide mapping of accessible chromatin in hTert-HME1 cell line treated with control or BRCA2 siRNAs and grown with or without EGF (epithelial growth factor)

Project description:Mammary epithelial cell line hTert-HME1 was transfected with Control or BRCA2 siRNAs then passaged four times (12 days), then were grown in mammary epithelial growth medium with or without EGF (epithelial growth factor) for 2 passages (6 days).

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Evaluation of sub-culturing on whole genome expression of skeletal muscle-derived cells

Project description:Today, cell therapy is considered as one of the most promising alternates to cure end-stage diseases. Using human cells for transplantation needs in vitro culture and passages which arises the concern of malignant transformation of cells. To evaluate the effect of sub-culturing on whole genome transcriptome of skeletal muscle-derived cells (SMDCs), microarray analysis was performed on passages 3, 6, 9 and 12 of SMDCs in three replicates.

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Expression Data from Uveal Melanoma patient-derived xenograft and tumor of origin

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Genome instability of aneuploids in Candida albicans

Project description:In C. albicans, four aneuploid strains, each bearing a unique karyotype, were daily passaged in YPD broth. After 10 passages, the adaptors were sequenced.

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Assessment of gene expression changes in ex vivo-expanded human skin-derived ABCB5-selected mesenchymal stem cells during passaging

Project description:To evaluate the potential impact of multiple passaging on the homogeneity of ex vivo-expanded, GMP-manufactured human skin-derived ABCB5+ mesenchymal stem cells, comparative gene expression profile analysis on cells from various passages was employed.

2020-02-21 | GSE145589 | GEO

Gene expression data of Sox17-GFP(+) mouse definitive endoderm before and after expansion on mesenchyme.

Project description:Mouse embryonic stem cells containing a Sox17-GFP construct were differentiated using growth factors (Activin A and Wnt3A) to definitive endoderm. Sox17-GFP(+) cells were sorted using fluorescence activated cell sorting and either used for total RNA harvest OR continued in culture in the presence of primary pancreatic mesenchymal cell lines. At the end of 6 serial passages on mesenchyme, the Sox17-GFP(+) cells were again sorted and the RNA was harvested for arrays. Samples were prepared as described in summary, with technical duplicates for each of the following 3 categories: 1. Unpassaged (P0) endoderm, 2. Endoderm passaged 6 times (P6) on mesenchyme 1, and 3. Endoderm passaged 6 times (P6) on mesenchyme 2.

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